The stochastic gradient (SG) method can quickly solve a problem with a large number of components in the objective, or a stochastic optimization problem, to a moderate accuracy. The block coordinate descent/update (BCD) method, on the other hand, can quickly solve problems with multiple (blocks of) variables. This paper introduces a method that combines the great features of SG and BCD for problems with many components in the objective and with multiple (blocks of) variables. This paper proposes a block SG (BSG) method for both convex and nonconvex programs. BSG generalizes SG by updating all the blocks of variables in the Gauss–Seidel type (updating the current block depends on the previously updated block), in either a fixed or randomly shuffled order. Although BSG has slightly more work at each iteration, it typically outperforms SG because of BSG’s Gauss–Seidel updates and larger step sizes, the latter of which are determined by the smaller per-block Lipschitz constants. The convergence of BSG is established for both convex and nonconvex cases. In the convex case, BSG has the same order of convergence rate as SG. In the nonconvex case, its convergence is established in terms of the expected violation of a first-order optimality condition. In both cases our analysis is nontrivial since the typical unbiasedness assumption no longer holds. BSG is numerically evaluated on the following problems: stochastic least squares and logistic regression, which are convex, and low-rank tensor recovery and bilinear logistic regression, which are nonconvex. On the convex problems, BSG performed significantly better than SG. On the nonconvex problems, BSG significantly outperformed the deterministic BCD method because the latter tends to stagnate early near local minimizers. Overall, BSG inherits the benefits of both SG approximation and block coordinate updates and is especially useful for solving large-scale nonconvex problems.

Comparing DNA and protein sequence groups plays an important role in biological evolutionary relationship research. Despite many methods available for sequence comparison, only a few can be used for group comparison. In this study, we propose a novel approach using convex hulls. We use statistical information contained within the sequences to represent each sequence as a point in high dimensional space. We find that the points belonging to one biological group are located in a different region of space than points belonging to other biological groups. To be more precise, the convex hull of the points from one group are disjoint from the convex hulls of points from other groups. This finding allows us to do phylogenetic analysis for groups in an efficient way. Five different theorems are presented for checking whether two convex hulls intersect or are disjoint. Test results for datasets related to HRV, HPV, Ebolavirus, PKC and protein phosphatase domains demonstrate that our method performs well and provides a new tool for studying group phylogeny. More significantly, the convex analysis presents a new way to search for sequences belonging to a biological group by examining points within the group’s convex hull.

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We propose a computational framework named iterative local adaptive majorize-minimization (I-LAMM) to simultaneously control algorithmic complexity and statistical error when fitting high dimensional models. I-LAMM is a two-stage algorithmic implementation of the local linear approximation to a family of folded concave penalized quasi-likelihood. The first stage solves a convex program with a crude precision tolerance to obtain a coarse initial estimator, which is further refined in the second stage by iteratively solving a sequence of convex programs with smaller precision tolerances. Theoretically, we establish a phase transition: the first stage has a sublinear iteration complexity, while the second stage achieves an improved linear rate of convergence. Though this framework is completely algorithmic, it provides solutions with optimal statistical performances and controlled algorithmic complexity for a large family